Genetic Structure and Geographical Differentiation of Traditional Rice (Oryza sativa L.) from Northern Vietnam

Plants

Le-Hung Linh¹  Cheryl Adeva²  Kyu-Chan Shim²  Sang-Nag Ahn²  Hyun-Sook Lee²  Ngoc Ha Luong² 

[1] Agricultural Genetics Institute, North Tu Liem District, Hanoi 100000, Vietnam;Department of Agronomy, Chungnam National University, Daejeon 34134, Korea;

关键词: rice;    genetic diversity;    population structure;    genetic differentiation;    marker-trait association;    northern Vietnam;   

DOI  :  10.3390/plants10102094

来源: DOAJ

【 摘 要 】

Northern Vietnam is one of the most important centers of genetic diversity for cultivated rice. Over thousands of years of cultivation, natural and artificial selection has preserved many traditional rice landraces in northern Vietnam due to its geographic situation, climatic conditions, and many ethnic groups. These local landraces serve as a rich source of genetic variation—an important resource for future crop improvement. In this study, we determined the genetic diversity and population structure of 79 rice landraces collected from northern Vietnam and 19 rice accessions collected from different countries. In total, 98 rice accessions could be differentiated into japonica and indica with moderate genetic diversity and a polymorphism information content of 0.382. Moreover, we found that genetic differentiation was related to geographical regions with an overall PhiPT (analog of fixation index F_ST) value of 0.130. We also detected subspecies-specific markers to classify rice (Oryza sativa L.) into indica and japonica. Additionally, we detected five marker-trait associations and rare alleles that can be applied in future breeding programs. Our results suggest that rice landraces in northern Vietnam have a dynamic genetic system that can create different levels of genetic differentiation among regions, but also maintain a balanced genetic diversity between regions.

【 授权许可】

Unknown